fixes

Author: chrisgorgo

fmriprep/utils/misc.py

@@ -19,6 +19,7 @@ def remove_rotation_and_shear(img):
 def split_and_rm_rotshear_func(in_file):
     import os
     from nilearn.image import iter_img
+    from fmriprep.utils.misc import remove_rotation_and_shear
     out_files = []
     for i, img in enumerate(iter_img(in_file)):
         out_file = os.path.abspath('vol%04d.nii.gz' % i)

fmriprep/workflows/bold/util.py

@@ -104,7 +104,7 @@ def init_bold_reference_wf(omp_nthreads, bold_file=None, name='bold_reference_wf
     gen_ref = pe.Node(EstimateReferenceImage(), name="gen_ref",
                       mem_gb=1)  # OE: 128x128x128x50 * 64 / 8 ~ 900MB.
     # Re-run validation; no effect if no sbref; otherwise apply same validation to sbref as bold
-    validate_ref = pe.Node(ValidateImage(remove_rotations_and_shear=True), name='validate_ref',
+    validate_ref = pe.Node(ValidateImage(remove_rotation_and_shear=True), name='validate_ref',
                            mem_gb=DEFAULT_MEMORY_MIN_GB)
     enhance_and_skullstrip_bold_wf = init_enhance_and_skullstrip_bold_wf(omp_nthreads=omp_nthreads)